niman

USA/OR-CDC-VSX-A336453/2023 Oregon Collected 8/28/23 35F Spike ins16MPLF, V483del NSP3 K1155R BA.2.86.1 NSP2 Y441C

isolate SARS-CoV-2/Human/USA/OR-CDC-VSX-A336453/2023 collected by Helix collection date 2023-08-28 isolation source PrimeStore MTM - Nasal Swab geographic location USA: Oregon host Homo sapiens host disease COVID-19 host sex female host age 35 collection device PrimeStore MTM - Nasal Swab collection method PrimeStore MTM - Nasal Swab purpose of sequencing baseline surveillance (random sampling) host_race White diagnostic_gene_name_1 N diagnostic_pcr_protocol_1 Helix COVID-19 and Flu Test diagnostic_pcr_Ct_value_1 Unknown diagnostic_gene_name_2 ORF1ab diagnostic_pcr_protocol_2 Helix COVID-19 and Flu Test diagnostic_pcr_Ct_value_2 Unknown diagnostic_gene_name_3 S diagnostic_pcr_protocol_3 Helix COVID-19 and Flu Test diagnostic_pcr_Ct_value_3 Unknown lineage/clade name BA.2.86 https://www.ncbi.nlm.nih.gov/biosample/SAMN37364437

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=41.40572499216093%2C-74.19581684015026&z=9

USA/NY-CDC-LC1055277/2023 New York collected 8/23/23 41F Spike ins16MPLF, V483del NSP3 K1155R BA.2.86.1 NSP3 K1689R

isolate SARS-CoV-2/Human/USA/NY-CDC-LC1055277/2023 collected by Laboratory Corporation of America collection date 2023-08-29 isolation source Nasal Swabs geographic location USA: New York host Homo sapiens host disease COVID-19 host sex female host age 41 collection device Nasal Swabs collection method Nasal Swabs purpose of sequencing baseline surveillance (random sampling) host_race Unknown diagnostic_gene_name_1 N1 gene diagnostic_pcr_protocol_1 Labcorp LDT diagnostic_pcr_Ct_value_1 24.449 diagnostic_gene_name_2 N2 gene diagnostic_pcr_protocol_2 Labcorp LDT diagnostic_pcr_Ct_value_2 23.534 diagnostic_gene_name_3 RP gene diagnostic_pcr_protocol_3 Labcorp LDT diagnostic_pcr_Ct_value_3 25.060 lineage/clade name BA.2.86 https://www.ncbi.nlm.nih.gov/biosample/SAMN37363768

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=40.46963319020722%2C-74.93190082452526&z=8

USA/NY-CDC-QDX84280418/2023 New York collected 8/22/23 33F Spike ins16MPLF, V483del NSP3 K1155R BA.2.86.1 NSP3 K1689R

isolate SARS-CoV-2/Human/USA/NY-CDC-QDX84280418/2023 collected by Quest Diagnostics Incorporated collection date 2023-08-22 isolation source Nasal Swabs geographic location USA: New York host Homo sapiens host disease COVID-19 host sex female host age 33 collection device Nasal Swabs collection method Nasal Swabs purpose of sequencing baseline surveillance (random sampling) host_race Unknown diagnostic_pcr_protocol_1 Hologic diagnostic_pcr_Ct_value_1 Unknown lineage/clade name BA.2.86 https://www.ncbi.nlm.nih.gov/biosample/SAMN37363000

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=41.6471479232209%2C-74.91860012382351&z=8

NY-CDC-QDX84783166/2023 New York 9/5/23 collection 40M Spike ins16MPLF, V483del NSP3 K1155R BA.2.86.1 NSP2 Y441C

isolate SARS-CoV-2/Human/USA/NY-CDC-QDX84783166/2023 collected by Quest Diagnostics Incorporated collection date 2023-09-05 isolation source Nasal Swabs geographic location USA: New York host Homo sapiens host disease COVID-19 host sex male host age 40 collection device Nasal Swabs collection method Nasal Swabs purpose of sequencing baseline surveillance (random sampling) host_race Unknown diagnostic_pcr_protocol_1 Roche diagnostic_pcr_Ct_value_1 17 lineage/clade name BA.2.86 https://www.ncbi.nlm.nih.gov/biosample/SAMN37536552

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=41.37517636242196%2C-74.03559895001369&z=9

USA/NY-CDC-QDX84783102/2023 New York 9/5/23 collection 54F Spike ins16MPLF, V438del NSP3 K1155R BA.2.86.1 NSP3 K1689R C11620T (NSP6)

isolate SARS-CoV-2/Human/USA/NY-CDC-QDX84783102/2023 collected by Quest Diagnostics Incorporated collection date 2023-09-05 isolation source Nasal Swabs geographic location USA: New York host Homo sapiens host disease COVID-19 host sex female host age 54 collection device Nasal Swabs collection method Nasal Swabs purpose of sequencing baseline surveillance (random sampling) host_race Unknown diagnostic_pcr_protocol_1 Roche diagnostic_pcr_Ct_value_1 Unknown lineage/clade name BA.2.86 https://www.ncbi.nlm.nih.gov/biosample/SAMN37537304

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=-33.925742076043505%2C18.62434672029354&z=12

South Africa/CERI-KRISP-K058327/2023 Western Cape 9/11/23 collection Spike ins16MPLF, V483del

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=39.654410535383356%2C-76.18217510730197&z=8

USA/PA-DHSS-B1305664/2023 Pennsylvania collected 8/20/23 53-58M SE PA Spike ins16XXXX, V483del detected NSP3 K1155R BA.2.86.1 NSP3 K1689R

collected by CCMC collection date 2023-08-20 geographic location USA: Pennsylvania host Homo sapiens host disease COVID-19 isolate SARS-CoV-2/Human/USA/PA-DHSS-B1305664/2023 isolation source clinical GISAID virus name hCoV-19/USA/PA-DHSS-B1305664/2023 host age 53 - 58 years host sex male purpose of sequencing Baseline surveillance BioProject PRJNA673096 Retrieve all samples from this project Submission Delaware Public Health Lab, Moneeb Bajwa; 2023-09-05 https://www.ncbi.nlm.nih.gov/biosample/SAMN37283082

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=42.171132699838324%2C-8.753390273337295&z=12

Spain/GA-CHUVI-22234334/2023 Vigo Hospital Alvaro Cunqueiro 8/17/23 collection Spike ins16MPLF, V483del NSP3 K1155R BA.2.86.1

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=42.17700089911014%2C-8.754420241599014&z=12

Spain/GA-CHUVI-22234371/2023 Vigo Hospital Alvaro Cunqueiro 8/15/23 collection Spike ins16MPLF, V483del NSP3 K1155R BA.2.86.1

map update https://www.google.com/maps/d/u/1/edit?mid=1OCfYIWOx61CCNsWu-FDaiTeSYn066gY&ll=59.34546378292039%2C18.039751297396727&z=13

Sweden/AB-01_SE100_23CS502375/2023 Solna Karolinska University Hospital 9/16/23 collection Spike ins16MPLF NSP3 K1155R BA.2.86.1 Spike T299I